miRNA display CGI


Results 1 - 20 of 28 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
8137 3' -53.4 NC_001978.2 + 28765 0.67 0.749357
Target:  5'- cGCGAuugucggagacGC-CCCGGAUCacaucaugggCAGCGUCGa -3'
miRNA:   3'- cCGCU-----------UGaGGGCUUAGa---------GUCGCAGCc -5'
8137 3' -53.4 NC_001978.2 + 25158 0.67 0.749357
Target:  5'- cGGCGcacaguGAUUCCCGuccGUCUCuGCGcauauggCGGg -3'
miRNA:   3'- -CCGC------UUGAGGGCu--UAGAGuCGCa------GCC- -5'
8137 3' -53.4 NC_001978.2 + 1004 0.67 0.738767
Target:  5'- gGGCGAcgaCCCGGAaggCUucccagcaagCGGCGUCGGc -3'
miRNA:   3'- -CCGCUugaGGGCUUa--GA----------GUCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 3228 0.67 0.738767
Target:  5'- cGGCccauACcgCCCGg--CUCAGCGuUCGGa -3'
miRNA:   3'- -CCGcu--UGa-GGGCuuaGAGUCGC-AGCC- -5'
8137 3' -53.4 NC_001978.2 + 30586 0.67 0.731287
Target:  5'- aGGCGGcuucgaugagugcGC-CCCGAccgaccuucgggcgaAUCUCGcCGUCGGg -3'
miRNA:   3'- -CCGCU-------------UGaGGGCU---------------UAGAGUcGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 27278 0.67 0.712921
Target:  5'- cGGCGAGCgcaucggacgucgCCCGGuaCUCAcGCGUugCGGu -3'
miRNA:   3'- -CCGCUUGa------------GGGCUuaGAGU-CGCA--GCC- -5'
8137 3' -53.4 NC_001978.2 + 38143 0.67 0.706379
Target:  5'- gGGCGAGCcgcugacgUCCCGAAggcgUGGCG-CGGc -3'
miRNA:   3'- -CCGCUUG--------AGGGCUUaga-GUCGCaGCC- -5'
8137 3' -53.4 NC_001978.2 + 4821 0.68 0.684393
Target:  5'- cGCGAACUCaCCGAuacgaAGCGUCu- -3'
miRNA:   3'- cCGCUUGAG-GGCUuagagUCGCAGcc -5'
8137 3' -53.4 NC_001978.2 + 22217 0.68 0.672207
Target:  5'- cGGCcuucagGAACUCCCGGAagugCUCgacguagGGCGUCa- -3'
miRNA:   3'- -CCG------CUUGAGGGCUUa---GAG-------UCGCAGcc -5'
8137 3' -53.4 NC_001978.2 + 6370 0.68 0.651056
Target:  5'- cGCGAgugugcgcacacAC-CaCCGAAUCguuucCGGCGUCGGg -3'
miRNA:   3'- cCGCU------------UGaG-GGCUUAGa----GUCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 6808 0.68 0.639894
Target:  5'- cGGCGcGCUCagcgucgaCCGGAUUgccCGGCGUCGu -3'
miRNA:   3'- -CCGCuUGAG--------GGCUUAGa--GUCGCAGCc -5'
8137 3' -53.4 NC_001978.2 + 36847 0.69 0.628723
Target:  5'- cGGCaGGCUCCgGcucaggCUcCGGCGUCGGc -3'
miRNA:   3'- -CCGcUUGAGGgCuua---GA-GUCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 5969 0.69 0.628723
Target:  5'- cGGCGaAGCgaaCCCGGuacuugCUCAG-GUCGGc -3'
miRNA:   3'- -CCGC-UUGa--GGGCUua----GAGUCgCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 11400 0.69 0.584173
Target:  5'- gGGCGuucagGGCUUCCGugaaCUCAGCG-CGGu -3'
miRNA:   3'- -CCGC-----UUGAGGGCuua-GAGUCGCaGCC- -5'
8137 3' -53.4 NC_001978.2 + 24748 0.7 0.562108
Target:  5'- cGCGAcaagcgccacAC-CCUGAGUCagaAGCGUCGGg -3'
miRNA:   3'- cCGCU----------UGaGGGCUUAGag-UCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 17698 0.7 0.540274
Target:  5'- gGGCGAcgGCUCCgGAcggCUCAGCGg--- -3'
miRNA:   3'- -CCGCU--UGAGGgCUua-GAGUCGCagcc -5'
8137 3' -53.4 NC_001978.2 + 18151 0.7 0.518734
Target:  5'- cGCGcugaAGgUCCCGAagGUCUgAGCGUCGa -3'
miRNA:   3'- cCGC----UUgAGGGCU--UAGAgUCGCAGCc -5'
8137 3' -53.4 NC_001978.2 + 5705 0.71 0.508091
Target:  5'- cGGCGucagcCUCaCCGAAgg-CAGCGUUGGc -3'
miRNA:   3'- -CCGCuu---GAG-GGCUUagaGUCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 13908 0.71 0.466512
Target:  5'- aGGCG----CCCGGAUacagggUCAGCGUCGGa -3'
miRNA:   3'- -CCGCuugaGGGCUUAg-----AGUCGCAGCC- -5'
8137 3' -53.4 NC_001978.2 + 25061 0.72 0.44639
Target:  5'- cGGCGGGCUUcggaCCGAAggUCAGCGcccauUCGGc -3'
miRNA:   3'- -CCGCUUGAG----GGCUUagAGUCGC-----AGCC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.